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Copyright © 2000, 2003, 2004 Malay Kumar Basu
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Program Name

entreZ nucleotide search
Limited to
ExcludeESTs STSs GSS working draft patents all
From To Use the format YYYY/MM/DD; month and day are optional.
webcutter
Sequence title
 Display
Restriction Map by enzyme name by base pair
Type of analysis
Linear Circular Find sites which may be introduced by silent mutagenesis
Enzymes
All
Not cutting
Enzymes cutting once
Enzymes cutting exactly times
Enzymes cutting at least times, and at most times
highlights for enzymes from the polylinker
Enzymes to include in the analysis
All enzymes in the database
Only enzymes with recognition sites equal to or greater than bases long
Only the following enzymes
Translate
Translate your nucleotide (DNA/RNA) sequence to a protein sequence on Expasy server. Input type - DNA/RNA sequence. Required option - none.

translate

Output format

Webcutter
One of the best programs for restriction analysis. Go to the home for complete features. Input type DNA. Required option-none.
Entrez
Retrieve a DNA sequence from Genbank at NCBI server. Input type key-words. Required option-none.
GeneMark
Predict ORF in your sequence. Input type: DNA sequence. Required option-none.

genemark

Title (optional)

Running options

Species

RBS model

Use alternate genetic code:
Eukaryote (e.g. Yeast, ATG = only start)
Mycoplasma (TGA = Tryptophan)

Window size

Step size

Threshold

Graphical output options

Generate PDF graphics (screen)

Generate PostScript graphics (email)

Mark orfs on graph

Mark regions on graph

Mark stop codons on graph

Mark start codons on graph

Mark frameshifts on graph

Mark putative exon splice sites

Print graph in landscape format

Text output options

List open reading frames (ORFs) predicted as coding sequences (CDSs)

List regions of interest

List putative eukaryotic splice sites

Write protein translations of ORFs

Write nucleotide transcripts of ORFs

Write protein translations of regions

Write nucleotide transcripts of regions

Write protein translations of putative exons

Write nucleotide transcripts of putative exons

Email address